Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008228.1 Hibiscus syriacus cultivar Beakdansim tig00110864_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3739947
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 20
Found at i:853745 original size:20 final size:20
Alignment explanation
Indices: 853368--853758 Score: 450
Period size: 20 Copynumber: 19.4 Consensus size: 20
853358 GATTTTCAAT
* ** *
853368 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
853388 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
853408 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
853428 AATCGCAACGTGTATCCGTAA
1 AATCGCAACGCGTATCCGT-A
**
853449 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
853469 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
853489 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
853509 AATCGCAACG-ATAATACATAA
1 AATCGCAACGCGT-ATCCGT-A
853530 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
853550 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
853570 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
853590 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
853610 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
853630 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
853650 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
853670 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
853690 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
853710 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
853730 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
853750 AATCACAAC
1 AATCGCAAC
853759 ACTGAAATTT
Statistics
Matches: 319, Mismatches: 40, Indels: 24
0.83 0.10 0.06
Matches are distributed among these distances:
19 4 0.01
20 279 0.87
21 35 0.11
22 1 0.00
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:854474 original size:24 final size:24
Alignment explanation
Indices: 854435--854481 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
854425 AAATTTGGTC
854435 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
854459 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
854482 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:854673 original size:12 final size:12
Alignment explanation
Indices: 854656--854680 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
854646 ATATAATCCT
854656 GAAGAAGAAAAA
1 GAAGAAGAAAAA
854668 GAAGAAGAAAAA
1 GAAGAAGAAAAA
854680 G
1 G
854681 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:855288 original size:19 final size:19
Alignment explanation
Indices: 855264--855322 Score: 118
Period size: 19 Copynumber: 3.1 Consensus size: 19
855254 ATTGTCACAA
855264 TTTATTTCGCGTTGCGATT
1 TTTATTTCGCGTTGCGATT
855283 TTTATTTCGCGTTGCGATT
1 TTTATTTCGCGTTGCGATT
855302 TTTATTTCGCGTTGCGATT
1 TTTATTTCGCGTTGCGATT
855321 TT
1 TT
855323 GTTGGTCATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.10, C:0.15, G:0.20, T:0.54
Consensus pattern (19 bp):
TTTATTTCGCGTTGCGATT
Found at i:856423 original size:8 final size:7
Alignment explanation
Indices: 856403--856433 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
856393 CCATTGTCTT
856403 TTAAAAA
1 TTAAAAA
856410 TTAAAAA
1 TTAAAAA
856417 TTAAAAA
1 TTAAAAA
856424 TATAAAAA
1 T-TAAAAA
856432 TT
1 TT
856434 TAATAATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
TTAAAAA
Found at i:859362 original size:24 final size:25
Alignment explanation
Indices: 859331--859391 Score: 106
Period size: 24 Copynumber: 2.5 Consensus size: 25
859321 TCGAAATTTT
859331 CACGTAGAATTGCACACGAA-GTGC
1 CACGTAGAATTGCACACGAATGTGC
859355 CACGTAGAATTGCACACGAATGTGC
1 CACGTAGAATTGCACACGAATGTGC
*
859380 TACGTAGAATTG
1 CACGTAGAATTG
859392 TACATATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 20 0.57
25 15 0.43
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (25 bp):
CACGTAGAATTGCACACGAATGTGC
Found at i:861021 original size:20 final size:20
Alignment explanation
Indices: 860976--861019 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
860966 CAAATGCAAT
860976 AAATAATATATTTTATTAACA
1 AAATAATATATTTTATT-ACA
860997 AAATAATAATATTATTATT-CA
1 AAATAAT-ATATT-TTATTACA
861018 AA
1 AA
861020 TATTAGAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 11 0.52
22 5 0.24
23 5 0.24
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATAATATATTTTATTACA
Found at i:861166 original size:43 final size:43
Alignment explanation
Indices: 861110--861196 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
861100 TTGCACAATA
* * *
861110 TTATTATAGTTTATTAAAATAAAA-A-TATTATAGTTATATTAAT
1 TTATTAAAATTTATAAAAATAAAATATTATTA-AG-TATATTAAT
*
861153 TTATTAAAATTTATAAAAATAATATATTATTAAGTATATTAAT
1 TTATTAAAATTTATAAAAATAAAATATTATTAAGTATATTAAT
861196 T
1 T
861197 ACTTATTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 30 0.79
44 3 0.08
45 5 0.13
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (43 bp):
TTATTAAAATTTATAAAAATAAAATATTATTAAGTATATTAAT
Found at i:861305 original size:27 final size:25
Alignment explanation
Indices: 861283--861353 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 25
861273 AATATTCAAC
861283 AATTTAATAATATTATTTGTATTAAATT
1 AATTTAATAATATTATTT-TATT-AA-T
*
861311 AA-TAAATAATATTAGTTTTATTAAT
1 AATTTAATAATATTA-TTTTATTAAT
*
861336 AATTTATTATATATTATT
1 AATTTAATA-ATATTATT
861354 AAAATAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
25 3 0.08
26 8 0.22
27 21 0.57
28 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (25 bp):
AATTTAATAATATTATTTTATTAAT
Found at i:861806 original size:3 final size:3
Alignment explanation
Indices: 861798--861823 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
861788 TCTGTGCCTC
861798 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
861824 TTTGTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:867034 original size:22 final size:23
Alignment explanation
Indices: 867002--867044 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
866992 ACCGGTTAAA
**
867002 ATTTATACCGGTTATATTATATT
1 ATTTATACCGGAAATATTATATT
867025 ATTTA-ACCGGAAATATTATA
1 ATTTATACCGGAAATATTATA
867045 AAGTACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (23 bp):
ATTTATACCGGAAATATTATATT
Found at i:867078 original size:23 final size:23
Alignment explanation
Indices: 867052--867099 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
867042 ATAAAGTACA
*
867052 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
867075 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
867098 AT
1 AT
867100 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:867552 original size:23 final size:23
Alignment explanation
Indices: 867526--867588 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
867516 ATATAACCAC
867526 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
867549 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
867572 TACCTATTACATCATAT
1 TACCTATTACATTATAT
867589 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:867773 original size:30 final size:29
Alignment explanation
Indices: 867733--867799 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
867723 TCATTTGCAC
* * *
867733 AAAAAATTATTT-GATTTTTTGATATTTTAT
1 AAAATATTATTTAGAATTTTT-A-ATTTAAT
867763 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
867792 AATAATAT
1 AA-AATAT
867800 ATCGTAACGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:867961 original size:427 final size:430
Alignment explanation
Indices: 867163--868034 Score: 1669
Period size: 427 Copynumber: 2.0 Consensus size: 430
867153 ACCTATTACA
* *
867163 ACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATTGATACTTCTTTTAAAGTTATGT
1 ACCTATTATATTGAAAGTGCCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGT
867228 AATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
66 AATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
*
867293 TTCATTTGCACAAAAAATTATTTTATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAAT
131 TTCATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAAT
867358 TTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
196 TTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
867423 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGAACA
261 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGAACA
867488 CTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACC
326 CTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACC
867553 TATTACATTATATAAGCGCTACCTATTACATCATATTTTT
391 TATTACATTATATAAGCGCTACCTATTACATCATATTTTT
867593 ACCTATTATATTGAAAGTGCCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGT
1 ACCTATTATATTGAAAGTGCCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGT
867658 AATTTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
66 AATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
867722 TTCATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAAT
131 TTCATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAAT
867787 TTAATAAT-A-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
196 TTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
* *
867850 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTTAAAAAAGTATGGACA
261 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGAACA
867915 CTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACC
326 CTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACC
*
867980 TATTACATTATATAAGCGTTACCTATTACATCATATTTTT
391 TATTACATTATATAAGCGCTACCTATTACATCATATTTTT
868020 ACCTATTATATTGAA
1 ACCTATTATATTGAA
868035 GAGAAAATCG
Statistics
Matches: 436, Mismatches: 6, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
427 236 0.54
428 1 0.00
429 122 0.28
430 77 0.18
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.40
Consensus pattern (430 bp):
ACCTATTATATTGAAAGTGCCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGT
AATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
TTCATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAAT
TTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGAACA
CTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACC
TATTACATTATATAAGCGCTACCTATTACATCATATTTTT
Found at i:867968 original size:21 final size:22
Alignment explanation
Indices: 867943--868015 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 22
867933 ACACTTTACA
*
867943 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
867966 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
* * *
867989 ATATAAGCGTTACCTATTACATC
1 ATATAAAC-ATACCTATTACATT
868012 ATAT
1 ATAT
868016 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 44 0.98
24 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.36
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:867979 original size:23 final size:23
Alignment explanation
Indices: 867953--868015 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
867943 ATATAACCAC
867953 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
867976 TACCTATTACATTATATAAGCGT
1 TACCTATTACATTATATAAACGA
*
867999 TACCTATTACATCATAT
1 TACCTATTACATTATAT
868016 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:868201 original size:21 final size:20
Alignment explanation
Indices: 868115--868272 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
868105 AAATGACCAA
**
868115 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
868134 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
868154 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
868174 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
868195 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
868216 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
868236 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
868257 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
868273 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:868263 original size:20 final size:20
Alignment explanation
Indices: 868239--868548 Score: 352
Period size: 20 Copynumber: 15.5 Consensus size: 20
868229 CGATTTTCCA
* ** *
868239 AAATCGCAACGCGAATATGA
1 AAATCGCAACGAGAATCCGT
* *
868259 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGAGAATC-CGT
* *
868279 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* *
868299 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
868319 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
868339 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
868359 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
*
868379 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
868399 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
868419 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
868439 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
868459 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
868479 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
868499 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
868519 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
868539 AAATCACAAC
1 AAATCGCAAC
868549 ACTGAAATTT
Statistics
Matches: 256, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
20 255 1.00
21 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGAGAATCCGT
Found at i:869270 original size:24 final size:24
Alignment explanation
Indices: 869231--869277 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
869221 AAATTTGGTC
869231 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
869255 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
869278 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:871789 original size:19 final size:19
Alignment explanation
Indices: 871720--871927 Score: 257
Period size: 19 Copynumber: 11.7 Consensus size: 19
871710 GCAACGAGAG
871720 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
871739 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
871753 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
871773 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
871792 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
871811 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
871825 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
871844 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
871863 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
871882 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
871896 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
871915 AATCGCATTGCGA
1 AATCGCAATGCGA
871928 TTCTCCCGTT
Statistics
Matches: 165, Mismatches: 8, Indels: 32
0.80 0.04 0.16
Matches are distributed among these distances:
14 32 0.19
15 2 0.01
16 5 0.03
17 5 0.03
18 2 0.01
19 103 0.62
20 16 0.10
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:871870 original size:71 final size:71
Alignment explanation
Indices: 871720--871927 Score: 355
Period size: 71 Copynumber: 2.9 Consensus size: 71
871710 GCAACGAGAG
* *
871720 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGC-GAAATGAAAATCGCAATGC
871784 GAAATGAA
64 GAAATGAA
871792 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
871857 AATGAA
66 AATGAA
* *
871863 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCATTGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
871928 TTCTCCCGTT
Statistics
Matches: 131, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
71 90 0.69
72 40 0.31
73 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
AATGAA
Found at i:871919 original size:33 final size:34
Alignment explanation
Indices: 871706--871921 Score: 278
Period size: 33 Copynumber: 6.2 Consensus size: 34
871696 CGGAAATTAC
*
871706 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
871739 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
871773 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
*
871811 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
871844 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
* *
871882 AATCGCAACGA-GAGAATCGCAATGCGAAATTAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
871915 AATCGCA
1 AATCGCA
871922 TTGCGATTCT
Statistics
Matches: 164, Mismatches: 7, Indels: 24
0.84 0.04 0.12
Matches are distributed among these distances:
32 1 0.01
33 77 0.47
34 17 0.10
35 2 0.01
36 5 0.03
37 1 0.01
38 45 0.27
39 16 0.10
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:871927 original size:52 final size:51
Alignment explanation
Indices: 871748--871927 Score: 184
Period size: 52 Copynumber: 3.4 Consensus size: 51
871738 AAATCCCAAC
871748 ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAA--CG--A-G-AAATCGCAATGCGAA
* * * * *
871806 ATGAAAATCGCAACGAGAGAATCG-CAATGCGAAATGA-AAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAAATCGCAATGCGAA
871858 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGA-AATCGCAATGCGAA
* *
871910 ATTAAAATCGCATTGCGA
1 ATGAAAATCGCAATGCGA
871928 TTCTCCCGTT
Statistics
Matches: 104, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
50 7 0.07
51 7 0.07
52 61 0.59
55 1 0.01
57 3 0.03
58 20 0.19
59 5 0.05
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.16
Consensus pattern (51 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAATCGCAATGCGAA
Found at i:871976 original size:19 final size:19
Alignment explanation
Indices: 871936--872033 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
871926 GATTCTCCCG
871936 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
871956 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
871975 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
871989 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
872008 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
872027 TTGCGAT
1 TTGCGAT
872034 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:872030 original size:52 final size:53
Alignment explanation
Indices: 871917--872033 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
871907 GAAATTAAAA
871917 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
*
871970 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
872022 TCGCATTGCGAT
1 TCGCATTGCGAT
872034 AGTCAATTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:872159 original size:14 final size:14
Alignment explanation
Indices: 872140--872176 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
872130 CATCAATTAC
872140 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
872154 ACAAATCATCTTTT
1 ACAAATCAACTTTT
872168 ACAAATCAA
1 ACAAATCAA
872177 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:873242 original size:18 final size:18
Alignment explanation
Indices: 873219--873257 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
873209 TAAATTTAAA
873219 AAAAAATTAATCAAATTG
1 AAAAAATTAATCAAATTG
873237 AAAAAATTAATCAAATTG
1 AAAAAATTAATCAAATTG
873255 AAA
1 AAA
873258 TATAAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAAAATTAATCAAATTG
Found at i:873550 original size:20 final size:20
Alignment explanation
Indices: 873534--873590 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 20
873524 TTCGCAACAT
*
873534 GAAACTTAAAATCGCAACGC
1 GAAACTCAAAATCGCAACGC
873554 GAAAC-CAAAATCGCAACGC
1 GAAACTCAAAATCGCAACGC
*
873573 GAAA-TGAAAATCGCAACG
1 GAAACTCAAAATCGCAACG
873591 ACAGAATCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 29 0.85
20 5 0.15
ACGTcount: A:0.47, C:0.25, G:0.18, T:0.11
Consensus pattern (20 bp):
GAAACTCAAAATCGCAACGC
Found at i:873600 original size:14 final size:14
Alignment explanation
Indices: 873581--873637 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
873571 GCGAAATGAA
*
873581 AATCGCAACGACAG
1 AATCGCAACGAAAG
873595 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
873612 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
873628 AATCGCAACG
1 AATCGCAACG
873638 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:873608 original size:33 final size:33
Alignment explanation
Indices: 873562--873654 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
873552 GCGAAACCAA
*
873562 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
873595 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
873628 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
873655 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:873619 original size:19 final size:19
Alignment explanation
Indices: 873541--873659 Score: 123
Period size: 19 Copynumber: 6.8 Consensus size: 19
873531 CATGAAACTT
**
873541 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATG
873560 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
873579 AAAATCGCAA--CGACA-G
1 AAAATCGCAACGCGAAATG
*
873595 --AATCGCAATGCGAAATG
1 AAAATCGCAACGCGAAATG
873612 AAAATCGCAA--CGAAA-G
1 AAAATCGCAACGCGAAATG
873628 --AATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
873645 AAAATCGCAATGCGA
1 AAAATCGCAACGCGA
873660 TTTTGGTTTC
Statistics
Matches: 85, Mismatches: 5, Indels: 20
0.77 0.05 0.18
Matches are distributed among these distances:
14 16 0.19
16 11 0.13
17 11 0.13
19 47 0.55
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:873677 original size:19 final size:19
Alignment explanation
Indices: 873655--873783 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
873645 AAAATCGCAA
*
873655 TGCGATTTTGGTTTCACGT
1 TGCGATTTTGGTTTCGCGT
*
873674 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
873688 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
873707 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
873721 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
873740 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
873759 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
873779 TGCGA
1 TGCGA
873784 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:873697 original size:33 final size:33
Alignment explanation
Indices: 873655--873746 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
873645 AAAATCGCAA
*
873655 TGCGATTTTGGTTTCACGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
873688 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
873721 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
873747 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 53 0.96
34 2 0.04
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:873947 original size:93 final size:93
Alignment explanation
Indices: 873831--874485 Score: 1285
Period size: 93 Copynumber: 7.1 Consensus size: 93
873821 ATGGATTGCA
873831 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
873895 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
873923 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
873988 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
874016 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACTGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
874081 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
874109 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
874174 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
874202 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
874267 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
874295 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
874360 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
874388 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
874453 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
874481 TTACT
1 TTACT
874486 AAGCAATCTA
Statistics
Matches: 559, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 4 0.01
93 555 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:876211 original size:14 final size:14
Alignment explanation
Indices: 876192--876281 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
876182 TTGAAATGAA
876192 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
876206 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
876225 AATCGCAACTAGAG
1 AATCGCAACGAGAG
*
876239 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
876258 AATCGCAACGAGAG
1 AATCGCAACGAGAG
876272 AATCGCAACG
1 AATCGCAACG
876282 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 30 0.50
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 20 0.33
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:876224 original size:33 final size:33
Alignment explanation
Indices: 876184--876298 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
876174 TCTTTTGGTT
876184 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
876217 GAAATGAAAATCGCAACTAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
876250 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
876283 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
876299 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:876230 original size:19 final size:19
Alignment explanation
Indices: 876206--876303 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
876196 GCAACGAGAG
876206 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
876225 AATCGCAA--C--TA-GAG
1 AATCGCAACGCGAAATGAA
876239 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
876258 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
876272 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
876291 AATCGCAATGCGA
1 AATCGCAACGCGA
876304 TTTTGGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 32 0.52
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:876334 original size:14 final size:14
Alignment explanation
Indices: 876315--876371 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
876305 TTTGGTTTCG
876315 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
876329 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
876348 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
876362 CGTTGCGATT
1 CGTTGCGATT
876372 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:876347 original size:33 final size:33
Alignment explanation
Indices: 876299--876379 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
876289 AAAATCGCAA
**
876299 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
876332 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
876365 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
876380 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:876382 original size:21 final size:21
Alignment explanation
Indices: 876356--876431 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
876346 CGCGTTGCGA
876356 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
876377 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
876397 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
876418 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
876432 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:876412 original size:41 final size:41
Alignment explanation
Indices: 876355--876432 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
876345 TCGCGTTGCG
*
876355 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
876396 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
876433 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:876553 original size:33 final size:33
Alignment explanation
Indices: 876511--876581 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
876501 AATACTAACT
*
876511 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
876544 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
876577 TGAAA
1 TGAAA
876582 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:876815 original size:22 final size:22
Alignment explanation
Indices: 876763--876817 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
876753 TGGTTGTGAG
**
876763 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
876785 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
876807 GGATTTCTTCG
1 GGATTTCTTCG
876818 CCGTAAAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:876989 original size:20 final size:20
Alignment explanation
Indices: 876964--877117 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
876954 CTTTAAATAT
876964 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
876984 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
877006 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
877025 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
877045 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
877065 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
877085 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
877105 CGCGTTGCGATTT
1 CGCGTTGCGATTT
877118 TGGAAAATCG
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 94 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:877091 original size:40 final size:40
Alignment explanation
Indices: 876963--877117 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
876953 GCTTTAAATA
*
876963 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGT
** * *
877004 TATCGTTGCGATTTACGGATACGCGTTGCGATATACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
877044 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
877084 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
877118 TGGAAAATCG
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 66 0.69
41 30 0.31
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Found at i:877134 original size:21 final size:21
Alignment explanation
Indices: 877104--877186 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
877094 ATTTTCATAT
*
877104 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
877125 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
877146 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
877167 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
877187 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:877177 original size:42 final size:43
Alignment explanation
Indices: 877084--877182 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
877074 ATTTATGTGT
* *
877084 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
877125 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
877167 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
877183 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:877683 original size:21 final size:22
Alignment explanation
Indices: 877658--877709 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
877648 ACACTTTACA
*
877658 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
877681 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
877704 ATATAA
1 ATATAA
877710 GCGCAACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:877694 original size:23 final size:24
Alignment explanation
Indices: 877668--877730 Score: 94
Period size: 23 Copynumber: 2.7 Consensus size: 24
877658 ATATAACCAC
877668 TACCTATTACATTATATAAACG-A
1 TACCTATTACATTATATAAACGCA
*
877691 TACCTATTACATTATATAAGCGCA
1 TACCTATTACATTATATAAACGCA
*
877715 -ACCTATTACATCATAT
1 TACCTATTACATTATAT
877731 TTTTACATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 36 0.97
24 1 0.03
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.35
Consensus pattern (24 bp):
TACCTATTACATTATATAAACGCA
Found at i:878111 original size:429 final size:430
Alignment explanation
Indices: 877323--878361 Score: 1890
Period size: 429 Copynumber: 2.4 Consensus size: 430
877313 CGATTTTCTC
877323 TATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTT-AA---A-G----TTA
1 TATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTA
877379 TG---CAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
66 TGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
877441 TGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATA
131 TGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATA
877506 ATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTA
196 ATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTA
*
877571 AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTA
261 AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATGGACACTTTTA
877636 TAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTAC
326 TAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTAC
877701 ATTATATAAGCGCAACCTATTACATCATATTTTTACATAT
391 ATTATATAAGCGCAACCTATTACATCATATTTTTACATAT
*
877741 TATATTGAAAGTGTCCATACTGTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTA
1 TATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTA
* *
877806 TGTTTTAATTTTTTTTAATAGTGTTTCATG-TTTCCACCTATAATATTAATTTAATAATTTCATT
66 TGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
* *
877870 TGCACAAAAAATTATTTAATTATTTGATATTTTATAAAATATTATTTAAAATTTTTAATTTAATA
131 TGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATA
877935 ATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTA
196 ATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTA
*
878000 AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATTGACACTTTTA
261 AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATGGACACTTTTA
*
878065 TAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACTTATTAC
326 TAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTAC
* *
878130 ATTATATAAGCGCTACCTATTACATCATATTTTTACCTAT
391 ATTATATAAGCGCAACCTATTACATCATATTTTTACATAT
878170 TATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTA
1 TATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTA
878235 TGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
66 TGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
878300 TGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATA-TATTTAGAATTTTTAATTTAA
131 TGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
878362 CAACATTAAC
Statistics
Matches: 593, Mismatches: 15, Indels: 15
0.95 0.02 0.02
Matches are distributed among these distances:
418 48 0.08
419 2 0.00
422 1 0.00
423 1 0.00
427 5 0.01
429 439 0.74
430 97 0.16
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (430 bp):
TATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTA
TGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
TGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATA
ATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTA
AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATGGACACTTTTA
TAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTAC
ATTATATAAGCGCAACCTATTACATCATATTTTTACATAT
Found at i:878127 original size:23 final size:23
Alignment explanation
Indices: 878097--878159 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
878087 ATATAACCAC
878097 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
878120 TACTTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
878143 TACCTATTACATCATAT
1 TACCTATTACATTATAT
878160 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:878633 original size:39 final size:39
Alignment explanation
Indices: 878579--878664 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
878569 CAAGTTGTAG
*
878579 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
878618 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
878657 ATTTTGAT
1 ATTTTGAT
878665 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:878945 original size:18 final size:18
Alignment explanation
Indices: 878922--878958 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
878912 CGAAATATAT
878922 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
878940 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
878958 A
1 A
878959 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:879422 original size:23 final size:23
Alignment explanation
Indices: 879396--879457 Score: 106
Period size: 23 Copynumber: 2.7 Consensus size: 23
879386 ATATAACCAC
879396 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
879419 TACCTATTATATTATATAAGCGA
1 TACCTATTACATTATATAAACGA
879442 TACCTATTACATTATA
1 TACCTATTACATTATA
879458 CTTTTGGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:879694 original size:19 final size:19
Alignment explanation
Indices: 879648--879696 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
879638 TTATATTCAC
*
879648 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
879667 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
879686 ATACAAAATTA
1 ATACAAAATTA
879697 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:881525 original size:33 final size:33
Alignment explanation
Indices: 881488--881553 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
881478 CATCTTAATA
*
881488 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
881521 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
881554 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:881612 original size:21 final size:21
Alignment explanation
Indices: 881587--881630 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
881577 CCCCTTATGC
881587 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
881608 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
881629 CT
1 CT
881631 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:883861 original size:21 final size:22
Alignment explanation
Indices: 883837--883877 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
883827 GGTATCATTT
883837 TACCGGTTTTATCAT-TTTTGA
1 TACCGGTTTTATCATATTTTGA
883858 TACCGGTTTTATCATATTTT
1 TACCGGTTTTATCATATTTT
883878 TACCTGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.20, C:0.15, G:0.12, T:0.54
Consensus pattern (22 bp):
TACCGGTTTTATCATATTTTGA
Found at i:883890 original size:20 final size:19
Alignment explanation
Indices: 883834--883881 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 19
883824 TCCGGTATCA
883834 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
883853 TTTGATACCGGTTTTATCATAT
1 TTT--TACCGGTTTTATCAT-T
883875 TTTTACC
1 TTTTACC
883882 TGTTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.12
20 4 0.15
21 15 0.58
22 4 0.15
ACGTcount: A:0.19, C:0.17, G:0.10, T:0.54
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:884042 original size:20 final size:20
Alignment explanation
Indices: 884015--884061 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
884005 TCCAGTAACG
884015 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
884034 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
884055 TTTTACC
1 TTTTACC
884062 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:884932 original size:228 final size:228
Alignment explanation
Indices: 884110--885053 Score: 1763
Period size: 228 Copynumber: 4.1 Consensus size: 228
884100 ACTTTTATAC
884110 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
884175 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
66 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
*
884240 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAT
131 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
884305 ATAATAATAAATATGTTTTCCACAGTGAAATAA
196 ATAATAATAAATATGTTTTCCACAGTGAAATAA
884338 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TT
*
884403 TTTTTAATAGTGTTTCATGTTTTCCACATACAATATTAATTTAATAATTTCATTTACACAAAAAA
65 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-AAAAA
884468 ATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
129 ATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
884533 AGATAATAATAAATATGTTTTCCACAGTGAAATAA
194 AGATAATAATAAATATGTTTTCCACAGTGAAATAA
884568 GTATGGACACTTTTAT-AAAA--ATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
884630 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
66 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
884695 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
131 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
884760 ATAATAATAAATATGTTTTCCACAGTGAAATAA
196 ATAATAATAAATATGTTTTCCACAGTGAAATAA
*
884793 GTATGGACACTTTTATAAAAATGATATATA-TATTTTTTAAAGTTATTTAATTTATGTTTCAATT
1 GTATGGACACTTTTATAAAAATGATATATACT-TTTTTTAAAGTTATGTAATTTATGTTTCAATT
* *
884857 TTTTTAATAGTGTTTCATTTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
65 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
884922 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
130 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
*
884987 GATAATAATAAATATATTTT-CACAGTGAAATAA
195 GATAATAATAAATATGTTTTCCACAGTGAAATAA
*
885020 GTATGGACACTTTTATAAAAAGGATATATACTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTT
885054 ACAATATAAC
Statistics
Matches: 701, Mismatches: 8, Indels: 15
0.97 0.01 0.02
Matches are distributed among these distances:
225 121 0.17
226 64 0.09
227 84 0.12
228 248 0.35
229 64 0.09
230 120 0.17
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (228 bp):
GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
ATAATAATAAATATGTTTTCCACAGTGAAATAA
Found at i:885049 original size:455 final size:457
Alignment explanation
Indices: 884110--885053 Score: 1765
Period size: 455 Copynumber: 2.1 Consensus size: 457
884100 ACTTTTATAC
884110 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAA-GATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
884175 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
65 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
*
884240 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAT
130 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
884305 ATAATAATAAATATGTTTTCCACAGTGAAATAAGTATGGACACTTTTATAAAAATGATATATACT
195 ATAATAATAAATATGTTTTCCACAGTGAAATAAGTATGGACACTTTTATAAAAATGATATATACT
884370 TTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACATACA
260 TTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACATACA
884435 ATATTAATTTAATAATTTCATTTACACAAAAAAATTATTTGATTATTTGATATTTTATAAAATAT
325 ATATTAATTTAATAATTTCATTTACACAAAAAAATTATTTGATTATTTGATATTTTATAAAATAT
*
884500 TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTTTTCCACAGTGAAA
390 TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCCACAGTGAAA
884565 TAA
455 TAA
884568 GTATGGACACTTTTAT-AAAA-ATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTT
1 GTATGGACACTTTTATAAAAAGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTT
884631 TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATT
66 TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATT
884696 ATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGA
131 ATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGA
884761 TAATAATAAATATGTTTTCCACAGTGAAATAAGTATGGACACTTTTATAAAAATGATATATA-TA
196 TAATAATAAATATGTTTTCCACAGTGAAATAAGTATGGACACTTTTATAAAAATGATATATACT-
* * *
884825 TTTTTTAAAGTTATTTAATTTATGTTTCAA-TTTTTTTAATAGTGTTTCATTTTTTCCACCTACA
260 TTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACATACA
*
884889 ATATTAATTTAATAATTTCATTTACAC-ACAAAATTATTTGATTATTTGATATTTTATAAAATAT
325 ATATTAATTTAATAATTTCATTTACACAAAAAAATTATTTGATTATTTGATATTTTATAAAATAT
884953 TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTT-CACAGTGAAA
390 TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCCACAGTGAAA
885017 TAA
455 TAA
885020 GTATGGACACTTTTATAAAAAGGATATATACTTT
1 GTATGGACACTTTTATAAAAA-GATATATACTTT
885054 ACAATATAAC
Statistics
Matches: 476, Mismatches: 6, Indels: 11
0.97 0.01 0.02
Matches are distributed among these distances:
452 29 0.06
453 93 0.20
454 60 0.13
455 274 0.58
457 4 0.01
458 16 0.03
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (457 bp):
GTATGGACACTTTTATAAAAAGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTT
TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATT
ATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGA
TAATAATAAATATGTTTTCCACAGTGAAATAAGTATGGACACTTTTATAAAAATGATATATACTT
TTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACATACAA
TATTAATTTAATAATTTCATTTACACAAAAAAATTATTTGATTATTTGATATTTTATAAAATATT
ATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCCACAGTGAAAT
AA
Found at i:885560 original size:3 final size:3
Alignment explanation
Indices: 885548--885595 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
885538 CATAATAATA
* * *
885548 ATT ATA ATT ATT ATT AAT ATA ATAT ATT ATT ATT ATT ATTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT A-TT ATT ATT
885595 A
1 A
885596 AATATATATA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
3 32 0.86
4 5 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:885575 original size:16 final size:16
Alignment explanation
Indices: 885550--885608 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
885540 TAATAATAAT
885550 TATAAT-TATTATTAA
1 TATAATATATTATTAA
*
885565 TATAATATATTATTAT
1 TATAATATATTATTAA
* *
885581 TATTATTTATTATTAAA
1 TATAATATATTATT-AA
885598 TATATATATAT
1 TATA-ATATAT
885609 ATATATTACA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
15 6 0.17
16 20 0.57
17 4 0.11
18 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATAATATATTATTAA
Found at i:885576 original size:19 final size:22
Alignment explanation
Indices: 885540--885585 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
885530 ATTTTTTTCA
885540 TAATAATAATTATAATTATTAT
1 TAATAATAATTATAATTATTAT
*
885562 TAAT-ATAATATATTATTATTAT
1 TAATAATAAT-TATAATTATTAT
885584 TA
1 TA
885586 TTTATTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATAATAATTATAATTATTAT
Found at i:886863 original size:14 final size:13
Alignment explanation
Indices: 886807--886878 Score: 58
Period size: 14 Copynumber: 5.2 Consensus size: 13
886797 ATTTAGTCAC
*
886807 TAATTTTA-ATTA
1 TAATTTTATATTT
886819 TAAGTTTTATTACTTT
1 TAA-TTTTA-TA-TTT
*
886835 TTATATTTA-ATTT
1 TAAT-TTTATATTT
886848 TAATTTTAATATTT
1 TAATTTT-ATATTT
886862 TAATTTTATATGTT
1 TAATTTTATAT-TT
886876 TAA
1 TAA
886879 ATTATTATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
12 6 0.12
13 16 0.33
14 17 0.35
15 2 0.04
16 8 0.16
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (13 bp):
TAATTTTATATTT
Found at i:890209 original size:21 final size:21
Alignment explanation
Indices: 890185--890224 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
890175 CTTTTCATAA
890185 ATGCATTTACATTTTGTATCT
1 ATGCATTTACATTTTGTATCT
*
890206 ATGCATTTTCATTTTGTAT
1 ATGCATTTACATTTTGTAT
890225 TCTTACTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.55
Consensus pattern (21 bp):
ATGCATTTACATTTTGTATCT
Found at i:897002 original size:22 final size:22
Alignment explanation
Indices: 896973--897027 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
896963 ATCTACACTC
896973 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
896995 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
897017 TTCAAAGATGA
1 TTCAAAGATGA
897028 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:897893 original size:184 final size:184
Alignment explanation
Indices: 897577--898129 Score: 1009
Period size: 184 Copynumber: 3.0 Consensus size: 184
897567 CCAATCAACA
* **
897577 TGTTATTTTGAAAAA-AATGAGAAAACAATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
1 TGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTTTATCTTTTCT-AAAATG
* *
897641 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCGCATATC
65 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATC
897706 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
130 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
897761 TGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGA
1 TGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGA
897826 AATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATCT
66 AATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATCT
*
897891 GTAAGTCCTGCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGT
131 GTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
897945 TGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGA
1 TGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGA
* * *
898010 AATTGTTGAAAAGTAAGAAAACGATTTTCTTAGTTTTTTTACTTATTAAACTATTTCCTACATCT
66 AATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATCT
898075 GTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
131 GTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
898129 T
1 T
898130 TTCAAAGCCT
Statistics
Matches: 358, Mismatches: 10, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
184 319 0.89
185 39 0.11
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (184 bp):
TGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGA
AATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATCT
GTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
Found at i:898169 original size:76 final size:76
Alignment explanation
Indices: 898070--898562 Score: 887
Period size: 76 Copynumber: 6.5 Consensus size: 76
898060 CTATTTCCTA
*
898070 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
898135 AGCCTTAGGGT
66 AGCCTTAGGGT
898146 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
898211 AGCCTTAGGGT
66 AGCCTTAGGGT
898222 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
898287 AGCCTTAGGGT
66 AGCCTTAGGGT
*
898298 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
898363 AGCCTTAGGGT
66 AGCCTTAGGGT
*
898374 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
898439 AGCCTTAGGGT
66 AGCCTTAGGGT
*
898450 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAAGCATTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-
* *
898515 AAAACCTTCGGGT
64 AAAGCCTTAGGGT
* * *
898528 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAA
898563 CATTTTCATC
Statistics
Matches: 404, Mismatches: 11, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
76 332 0.82
77 32 0.08
78 40 0.10
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:898718 original size:16 final size:16
Alignment explanation
Indices: 898689--898751 Score: 67
Period size: 16 Copynumber: 3.9 Consensus size: 16
898679 TTCATAATAA
898689 TAATAATAAT-TATTAT
1 TAAT-ATAATATATTAT
898705 TAATATAATATATTAT
1 TAATATAATATATTAT
* * *
898721 TATTATTATTTATTAT
1 TAATATAATATATTAT
898737 TAA-ATATATATATTA
1 TAATATA-ATATATTA
898752 CAAATTACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
15 7 0.18
16 32 0.82
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TAATATAATATATTAT
Found at i:899987 original size:14 final size:13
Alignment explanation
Indices: 899931--900002 Score: 58
Period size: 14 Copynumber: 5.2 Consensus size: 13
899921 ATTTAGTCAC
*
899931 TAATTTTA-ATTA
1 TAATTTTATATTT
899943 TAAGTTTTATTACTTT
1 TAA-TTTTA-TA-TTT
*
899959 TTATATTTA-ATTT
1 TAAT-TTTATATTT
899972 TAATTTTAATATTT
1 TAATTTT-ATATTT
899986 TAATTTTATATGTT
1 TAATTTTATAT-TT
900000 TAA
1 TAA
900003 ATTGTTATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
12 6 0.12
13 16 0.33
14 17 0.35
15 2 0.04
16 8 0.16
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (13 bp):
TAATTTTATATTT
Found at i:900193 original size:31 final size:33
Alignment explanation
Indices: 900158--900220 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
900148 ATAATTAAAC
900158 ATTATAAAAATTAT-A-ATTTAGTTTTATTTAA
1 ATTATAAAAATTATAATATTTAGTTTTATTTAA
* * *
900189 ATTATTAAAATTTTAATATTTATTTTTATTTA
1 ATTATAAAAATTATAATATTTAGTTTTATTTA
900221 TTAATATCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 12 0.44
32 1 0.04
33 14 0.52
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (33 bp):
ATTATAAAAATTATAATATTTAGTTTTATTTAA
Found at i:901678 original size:2 final size:2
Alignment explanation
Indices: 901671--901699 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
901661 TTGGTCAAAC
901671 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
901700 AGGATCTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:903473 original size:18 final size:19
Alignment explanation
Indices: 903449--903499 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
903439 TCATATTCAG
903449 GTAATTTTAAAAAAATATT
1 GTAATTTTAAAAAAATATT
*
903468 -TAATTTTTAAAAAATATT
1 GTAATTTTAAAAAAATATT
* *
903486 GTTATATTAAAAAA
1 GTAATTTTAAAAAA
903500 CCTTAATTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 17 0.63
19 10 0.37
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (19 bp):
GTAATTTTAAAAAAATATT
Found at i:905585 original size:41 final size:42
Alignment explanation
Indices: 905538--905663 Score: 168
Period size: 41 Copynumber: 3.1 Consensus size: 42
905528 ATTGTCGTCT
*
905538 CAAATCACCAACTAAGACTAGTGACAAAAA-ATTTATCAACA
1 CAAATCACCAACTAAGACTAGTGACAAAAATATTTATCATCA
** * * *
905579 CAAATCACTGACTAAAACTAGTGACAAAAATAATTATCGTCA
1 CAAATCACCAACTAAGACTAGTGACAAAAATATTTATCATCA
*
905621 CAAAACACCAACTAAGACTAGTGA-AAAAATATTT-TCATCA
1 CAAATCACCAACTAAGACTAGTGACAAAAATATTTATCATCA
905661 CAA
1 CAA
905664 TTATGAATAA
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
40 8 0.11
41 36 0.50
42 28 0.39
ACGTcount: A:0.50, C:0.21, G:0.08, T:0.21
Consensus pattern (42 bp):
CAAATCACCAACTAAGACTAGTGACAAAAATATTTATCATCA
Found at i:905635 original size:42 final size:42
Alignment explanation
Indices: 905521--905651 Score: 158
Period size: 41 Copynumber: 3.2 Consensus size: 42
905511 CAATAGCAAT
* * *
905521 AAAAATTATTGTCGTCTCAAATCACCAACTAAGACTAGTGAC
1 AAAAATAATTATCGTCACAAATCACCAACTAAGACTAGTGAC
* ** ** *
905563 AAAAA-ATTTATCAACACAAATCACTGACTAAAACTAGTGAC
1 AAAAATAATTATCGTCACAAATCACCAACTAAGACTAGTGAC
*
905604 AAAAATAATTATCGTCACAAAACACCAACTAAGACTAGTGA-
1 AAAAATAATTATCGTCACAAATCACCAACTAAGACTAGTGAC
905645 AAAAATA
1 AAAAATA
905652 TTTTCATCAC
Statistics
Matches: 72, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
41 39 0.54
42 33 0.46
ACGTcount: A:0.50, C:0.19, G:0.09, T:0.22
Consensus pattern (42 bp):
AAAAATAATTATCGTCACAAATCACCAACTAAGACTAGTGAC
Found at i:907402 original size:6 final size:6
Alignment explanation
Indices: 907391--907426 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
907381 TAACAAGTAG
*
907391 AAAAAT AAAAAT AAAAAT AAAAGT AAATAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT AAAAA
907427 AAACAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:907404 original size:26 final size:25
Alignment explanation
Indices: 907377--907434 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 25
907367 AGGTCTCTAT
907377 AAAATAACAAGTAGAAAAATAAAAATA
1 AAAATAA-AAGTA-AAAAATAAAAATA
*
907404 AAAATAAAAGTAAATAATAAAAA-A
1 AAAATAAAAGTAAAAAATAAAAATA
907428 AACAATA
1 AA-AATA
907435 TTATTTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 3 0.10
25 14 0.48
26 5 0.17
27 7 0.24
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (25 bp):
AAAATAAAAGTAAAAAATAAAAATA
Found at i:907422 original size:13 final size:12
Alignment explanation
Indices: 907377--907425 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
907367 AGGTCTCTAT
907377 AAAATAACAAGTAGA
1 AAAATAA-AAGT--A
*
907392 AAAATAAAAATA
1 AAAATAAAAGTA
907404 AAAATAAAAGTA
1 AAAATAAAAGTA
907416 AATAATAAAA
1 AA-AATAAAA
907426 AAAACAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 14 0.45
13 7 0.23
14 3 0.10
15 7 0.23
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (12 bp):
AAAATAAAAGTA
Found at i:919672 original size:22 final size:22
Alignment explanation
Indices: 919647--919695 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
919637 ATATATTTAT
919647 TAATATTTCTAATAATATAATA
1 TAATATTTCTAATAATATAATA
* *
919669 TAATATTTTTAATATTATAATA
1 TAATATTTCTAATAATATAATA
*
919691 AAATA
1 TAATA
919696 ATCAATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATATTTCTAATAATATAATA
Found at i:919888 original size:23 final size:23
Alignment explanation
Indices: 919869--919913 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
919859 AATAATATTT
919869 TAATAAATATATTTAAAATATAC
1 TAATAAATATATTTAAAATATAC
* *
919892 TAATTAATATTTTTAAAATATA
1 TAATAAATATATTTAAAATATA
919914 ATATAACACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
TAATAAATATATTTAAAATATAC
Found at i:920373 original size:44 final size:42
Alignment explanation
Indices: 920320--920485 Score: 156
Period size: 44 Copynumber: 3.9 Consensus size: 42
920310 AATGACACAT
* *
920320 TTAATTTTTTTTCAATTTTATTTTTTATATTTATAATTAAAGTCC
1 TTAA-TTTTTTT-AATTTCATTTTTTACATTTATAATTAAAGT-C
* * * *
920365 TTAATTTTTTGTAATATCATTTTTTACCTTTATAGTTAAAGTT
1 TTAATTTTTT-TAATTTCATTTTTTACATTTATAATTAAAGTC
* *
920408 TCTAATTTTTTTAATTTCATTTTCTACATTTATAATT-AAGGC
1 T-TAATTTTTTTAATTTCATTTTTTACATTTATAATTAAAGTC
* * * *
920450 -TAATTTTTTTCAATCTCACTTTCTACCTTTATAATT
1 TTAATTTTTTT-AATTTCATTTTTTACATTTATAATT
920486 GATGTTCCTA
Statistics
Matches: 103, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
40 10 0.10
41 22 0.21
42 3 0.03
43 23 0.22
44 40 0.39
45 5 0.05
ACGTcount: A:0.28, C:0.11, G:0.04, T:0.58
Consensus pattern (42 bp):
TTAATTTTTTTAATTTCATTTTTTACATTTATAATTAAAGTC
Found at i:920388 original size:43 final size:42
Alignment explanation
Indices: 920341--920446 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 42
920331 TCAATTTTAT
920341 TTTTTATATTTATAATTAAAGTC-CTTAATTTTTTGTAATATCA
1 TTTTTATATTTATAATTAAAGTCTC-TAATTTTTT-TAATATCA
* * *
920384 TTTTT-TACCTTTATAGTTAAAGTTTCTAATTTTTTTAATTTCA
1 TTTTTATA--TTTATAATTAAAGTCTCTAATTTTTTTAATATCA
*
920427 TTTTCTACATTTATAATTAA
1 TTTT-TATATTTATAATTAA
920447 GGCTAATTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.04
43 26 0.49
44 23 0.43
45 2 0.04
ACGTcount: A:0.30, C:0.08, G:0.04, T:0.58
Consensus pattern (42 bp):
TTTTTATATTTATAATTAAAGTCTCTAATTTTTTTAATATCA
Found at i:920473 original size:41 final size:40
Alignment explanation
Indices: 920409--920485 Score: 118
Period size: 41 Copynumber: 1.9 Consensus size: 40
920399 GTTAAAGTTT
* *
920409 CTAATTTTTTTAATTTCATTTTCTACATTTATAATTAAGG
1 CTAATTTTTTTAATCTCACTTTCTACATTTATAATTAAGG
*
920449 CTAATTTTTTTCAATCTCACTTTCTACCTTTATAATT
1 CTAATTTTTTT-AATCTCACTTTCTACATTTATAATT
920486 GATGTTCCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 11 0.33
41 22 0.67
ACGTcount: A:0.27, C:0.16, G:0.03, T:0.55
Consensus pattern (40 bp):
CTAATTTTTTTAATCTCACTTTCTACATTTATAATTAAGG
Found at i:920573 original size:43 final size:45
Alignment explanation
Indices: 920494--920600 Score: 132
Period size: 43 Copynumber: 2.4 Consensus size: 45
920484 TTGATGTTCC
* * *
920494 TAATTGAGGCCTCTAATTTTTTTTTTAATTTCACTTTTTACATTTA
1 TAATTGAAGCCTCTAA-TTTTTTTTCAATCTCACTTTTTACATTTA
*
920540 TAATTGAAGCCTCT-A-TTTTTTTCAATCTCACTTTTTACTTTTA
1 TAATTGAAGCCTCTAATTTTTTTTCAATCTCACTTTTTACATTTA
920583 TAATT-AAGGCC-CTAATTT
1 TAATTGAA-GCCTCTAATTT
920601 AATCATTTTC
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
42 4 0.07
43 34 0.63
44 2 0.04
45 1 0.02
46 13 0.24
ACGTcount: A:0.25, C:0.16, G:0.07, T:0.52
Consensus pattern (45 bp):
TAATTGAAGCCTCTAATTTTTTTTCAATCTCACTTTTTACATTTA
Found at i:920624 original size:102 final size:100
Alignment explanation
Indices: 920418--920599 Score: 215
Period size: 102 Copynumber: 1.8 Consensus size: 100
920408 TCTAATTTTT
*
920418 TTAATTTCATTTTCTACATTTATAATTAAGGCTAATTTTTTTCAATCTCACTTTCTACCTTTATA
1 TTAATTTCATTTTCTACATTTATAATTAAGCCTAATTTTTTTCAATCTCACTTTCTACCTTTATA
* ** * * ** *
920483 ATTGATGTTCCTAATTGAGGCCTCTAATTTTTTTT
66 ATTGAAGGCCCTAATTGAAGCATCTAATTAATTTA
* * *
920518 TTAATTTCACTTTT-TACATTTATAATTGAAGCCTCTATTTTTTTCAATCTCACTTTTTACTTTT
1 TTAATTTCA-TTTTCTACATTTATAATT-AAGCCT-AATTTTTTTCAATCTCACTTTCTACCTTT
920582 ATAATT-AAGGCCCTAATT
63 ATAATTGAAGGCCCTAATT
920600 TAATCATTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
100 22 0.31
101 18 0.25
102 32 0.44
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (100 bp):
TTAATTTCATTTTCTACATTTATAATTAAGCCTAATTTTTTTCAATCTCACTTTCTACCTTTATA
ATTGAAGGCCCTAATTGAAGCATCTAATTAATTTA
Found at i:922032 original size:18 final size:17
Alignment explanation
Indices: 922009--922044 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
921999 AGTTATTGAA
922009 AATATTATATATTTAAAT
1 AATATTATATA-TTAAAT
*
922027 AATATTTTATATTAAAT
1 AATATTATATATTAAAT
922044 A
1 A
922045 TAGTTAACGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATATTATATATTAAAT
Found at i:922150 original size:13 final size:14
Alignment explanation
Indices: 922119--922152 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
922109 ATCTATTTTC
922119 AATTTAAAATTTAA
1 AATTTAAAATTTAA
922133 AATTTAAAA-TTAA
1 AATTTAAAATTTAA
*
922146 TATTTAA
1 AATTTAA
922153 TGTCTTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AATTTAAAATTTAA
Found at i:922153 original size:7 final size:7
Alignment explanation
Indices: 922119--922152 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
922109 ATCTATTTTC
922119 AATTTAA
1 AATTTAA
922126 AATTTAA
1 AATTTAA
922133 AATTTAA
1 AATTTAA
922140 AA-TTAA
1 AATTTAA
*
922146 TATTTAA
1 AATTTAA
922153 TGTCTTCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:925145 original size:16 final size:16
Alignment explanation
Indices: 925124--925164 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
925114 AGACAAAGTG
925124 TTTAGTTTCTATAGTA
1 TTTAGTTTCTATAGTA
*
925140 TTTAGTTTCTATAGTG
1 TTTAGTTTCTATAGTA
925156 TTTAGTTTC
1 TTTAGTTTC
925165 ATGCAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.20, C:0.07, G:0.15, T:0.59
Consensus pattern (16 bp):
TTTAGTTTCTATAGTA
Found at i:929770 original size:26 final size:26
Alignment explanation
Indices: 929732--929781 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
929722 GGCTTTGATT
* * *
929732 AAGATAACTTCAAATAGTTCAAGATG
1 AAGACAACCTCAAATACTTCAAGATG
929758 AAGACAACCTCAAATACTTCAAGA
1 AAGACAACCTCAAATACTTCAAGA
929782 ATCTAAATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (26 bp):
AAGACAACCTCAAATACTTCAAGATG
Found at i:930272 original size:2 final size:2
Alignment explanation
Indices: 930265--930308 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
930255 CATTAACATA
930265 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
930307 AT
1 AT
930309 GTGAGGTTAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:935758 original size:34 final size:34
Alignment explanation
Indices: 935715--935782 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
935705 AAATACTCCC
935715 CCTTACTTTAACACTTACTCCTCTTTTAAAACAT
1 CCTTACTTTAACACTTACTCCTCTTTTAAAACAT
*
935749 CCTTACTTTAACACTTACTCTTCTTTTAAAACAT
1 CCTTACTTTAACACTTACTCCTCTTTTAAAACAT
935783 TTAACACATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.29, C:0.28, G:0.00, T:0.43
Consensus pattern (34 bp):
CCTTACTTTAACACTTACTCCTCTTTTAAAACAT
Found at i:935774 original size:17 final size:17
Alignment explanation
Indices: 935720--935774 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
935710 CTCCCCCTTA
*
935720 CTTTAACACTTACTCCT
1 CTTTAACACTTACTCTT
* *
935737 CTTTTAAAACAT-C-CTT
1 C-TTTAACACTTACTCTT
935753 ACTTTAACACTTACTCTT
1 -CTTTAACACTTACTCTT
935771 CTTT
1 CTTT
935775 TAAAACATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 8
0.69 0.12 0.19
Matches are distributed among these distances:
16 10 0.34
17 8 0.28
18 11 0.38
ACGTcount: A:0.25, C:0.29, G:0.00, T:0.45
Consensus pattern (17 bp):
CTTTAACACTTACTCTT
Found at i:936058 original size:16 final size:15
Alignment explanation
Indices: 936022--936074 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 15
936012 AAGTTCTCAT
*
936022 AAATCCAAACAAGTTCA
1 AAAT-CAAACAA-TCCA
936039 AAATCAAACAATCCA
1 AAATCAAACAATCCA
*
936054 CAAATTCAAACATTCCA
1 -AAA-TCAAACAATCCA
936071 AAAT
1 AAAT
936075 ATTCAAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 4 0.12
16 13 0.41
17 15 0.47
ACGTcount: A:0.55, C:0.25, G:0.02, T:0.19
Consensus pattern (15 bp):
AAATCAAACAATCCA
Found at i:937992 original size:8 final size:8
Alignment explanation
Indices: 937979--938015 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
937969 AGAAACGGCG
937979 GAAGAAAA
1 GAAGAAAA
937987 GAAGAAAA
1 GAAGAAAA
937995 GAAGAAAA
1 GAAGAAAA
938003 GAAGAAAA
1 GAAGAAAA
938011 GAAGA
1 GAAGA
938016 GGGTTTAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (8 bp):
GAAGAAAA
Found at i:941988 original size:22 final size:21
Alignment explanation
Indices: 941946--941985 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
941936 GAGTTTATTT
*
941946 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
941967 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
941986 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:944293 original size:32 final size:32
Alignment explanation
Indices: 944256--944321 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 32
944246 GTGCCAACCT
** * *
944256 AAGGGAATGTCTTGGGGCCTGAGAGCCTACCC
1 AAGGGAATACCTTAGGGCCTAAGAGCCTACCC
* *
944288 AAGGGAGTACCTTAGGGCCTAAGAGCTTACCC
1 AAGGGAATACCTTAGGGCCTAAGAGCCTACCC
944320 AA
1 AA
944322 TGATGTACCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.27, C:0.24, G:0.30, T:0.18
Consensus pattern (32 bp):
AAGGGAATACCTTAGGGCCTAAGAGCCTACCC
Found at i:944330 original size:32 final size:32
Alignment explanation
Indices: 944270--944349 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
944260 GAATGTCTTG
* *
944270 GGGCCTGAGAGCCTACCCAAGGGAGTACCTTA
1 GGGCCTAAGAGCCTACCCAAGGGAGTACCATA
* * *
944302 GGGCCTAAGAGCTTACCCAA-TGATGTACCATG
1 GGGCCTAAGAGCCTACCCAAGGGA-GTACCATA
*
944334 GGGCCTTAGAGCCTAC
1 GGGCCTAAGAGCCTAC
944350 TTAAGGAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 2 0.05
32 38 0.95
ACGTcount: A:0.25, C:0.28, G:0.29, T:0.19
Consensus pattern (32 bp):
GGGCCTAAGAGCCTACCCAAGGGAGTACCATA
Found at i:944370 original size:32 final size:31
Alignment explanation
Indices: 944334--944403 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 31
944324 ATGTACCATG
*
944334 GGGCCTTAGAGC-CTACTTAAGGAAATGCCCTT
1 GGGCCTTAGA-CTCTACCTAAGGAAATG-CCTT
944366 GGGCCTTAGACTCTACCTAAGGAAATGCCTT
1 GGGCCTTAGACTCTACCTAAGGAAATGCCTT
944397 GAGGCCT
1 G-GGCCT
944404 CAGTGTCTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
31 6 0.17
32 29 0.83
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (31 bp):
GGGCCTTAGACTCTACCTAAGGAAATGCCTT
Found at i:946437 original size:14 final size:13
Alignment explanation
Indices: 946417--946461 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
946407 AAGTCAACGG
946417 GTTGACTTAGTCGA
1 GTTGACTTAGT-GA
* *
946431 TTTGACTTAATGA
1 GTTGACTTAGTGA
946444 GTTGACTTAGCTGA
1 GTTGACTTAG-TGA
946458 GTTG
1 GTTG
946462 GATCAGCTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.40
Consensus pattern (13 bp):
GTTGACTTAGTGA
Found at i:947669 original size:18 final size:18
Alignment explanation
Indices: 947646--947691 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
947636 AACATTCCCA
947646 GTAATCTTATTCCCGCCG
1 GTAATCTTATTCCCGCCG
* * **
947664 GTAATCCTATTCTCGTTG
1 GTAATCTTATTCCCGCCG
947682 GTAATCTTAT
1 GTAATCTTAT
947692 ATTCCGTGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (18 bp):
GTAATCTTATTCCCGCCG
Found at i:948043 original size:16 final size:16
Alignment explanation
Indices: 948024--948058 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
948014 AGATAAAAAA
948024 TTAAAAT-AATAGATAT
1 TTAAAATAAATA-ATAT
948040 TTAAAATAAATAATAT
1 TTAAAATAAATAATAT
948056 TTA
1 TTA
948059 TTATATTTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
TTAAAATAAATAATAT
Found at i:952669 original size:25 final size:26
Alignment explanation
Indices: 952637--952691 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 26
952627 TCCTCCAAAT
952637 ATATGAATAAATTTTAAACAATGAA-
1 ATATGAATAAATTTTAAACAATGAAC
952662 ATATGAATAAATTTTAAACAATGAAC
1 ATATGAATAAATTTTAAACAATGAAC
952688 ATAT
1 ATAT
952692 CATTGTCGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (26 bp):
ATATGAATAAATTTTAAACAATGAAC
Found at i:953463 original size:4 final size:4
Alignment explanation
Indices: 953451--953482 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
953441 CAAACAAATA
*
953451 TATG CATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG
953483 GAAGTACCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:956397 original size:182 final size:182
Alignment explanation
Indices: 955830--956507 Score: 1060
Period size: 181 Copynumber: 3.7 Consensus size: 182
955820 TTGTCTGTTT
*
955830 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAAATGAAAAAAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGT-AAAAAAATGACAAAAC
* * * *
955895 CGATATATAAATGACAAAACCAATAAAGCGCTACCGGATATGTTGAAAGTGTCAATACATTAATA
65 CGGTCTATAAATGACAAAACCAGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATA
* * * *
955960 TAAGTTTCGACACCTTTAGAATTTAAAAAAGGAGCAGTTATAGCGCCTATAAA
130 TAAGTATCGACACCTTTGGAATTTAAAAGAGGAGCAGTAATAGCGCCTATAAA
* * *
956013 GTGTCGATACTTTACAAAAATGTATCGATCTATTACAATATAA-AAGGTAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAA-GTAAAAAAATGACAAAAC
* * **
956077 CGGTCTATAAATGACGAAACCGGTAAAGCATTACCGGATATGTT-AAAGTGTCGATACATTAATA
65 CGGTCTATAAATGACAAAACCAGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATA
* *
956141 TAAGTATCGACACCTTTGGAATTTAAAAGAGGAGCAGTAATGGCGCTTATAAA
130 TAAGTATCGACACCTTTGGAATTTAAAAGAGGAGCAGTAATAGCGCCTATAAA
*
956194 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACGAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
*
956259 GGTCTATAAATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATAT
66 GGTCTATAAATGACAAAACCAGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATAT
* * *
956324 AAGTATCGACACTTTTGGAATTTAAAAGAGGAGCTGTAATAGCACCTATAAA
131 AAGTATCGACACCTTTGGAATTTAAAAGAGGAGCAGTAATAGCGCCTATAAA
*
956376 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
* * *
956440 GGTCTATAAATGAAAAAACCAGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACATT-AT-T
66 GGTCTATAAATGACAAAACCAGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATAT
956503 AAGTA
131 AAGTA
956508 GGCGTAATAA
Statistics
Matches: 456, Mismatches: 36, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
179 6 0.01
180 2 0.00
181 235 0.52
182 171 0.38
183 42 0.09
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.26
Consensus pattern (182 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACCAGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATAT
AAGTATCGACACCTTTGGAATTTAAAAGAGGAGCAGTAATAGCGCCTATAAA
Found at i:956496 original size:363 final size:362
Alignment explanation
Indices: 955830--956507 Score: 1090
Period size: 363 Copynumber: 1.9 Consensus size: 362
955820 TTGTCTGTTT
955830 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAAATGAAAAAAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAAATGAAAAAAC
955895 CGATATATAAATGACAAAACCAATAAAGCGCTACCGGATATGTTGAAAGTGTCAATACATTAATA
66 CGATATATAAATGACAAAACCAATAAAGCGCTACCGGATATGTTGAAAGTGTCAATACATTAATA
* * *
955960 TAAGTTTCGACACCTTTAGAATTTAAAAAAGGAGCAGTTATAGCGCCTATAAAGTGTCGATACTT
131 TAAGTATCGACACCTTTAGAATTTAAAAAAGGAGCAGTAATAGCACCTATAAAGTGTCGATACTT
* *
956025 TACAAAAATGTATCGATCTATTACAATATAAAAGGTAAAAAAATGACAAAACCGGTCTATAAATG
196 TACAAAAATGTATCGATCCATAACAATATAAAAGGTAAAAAAATGACAAAACCGGTCTATAAATG
** * * * *
956090 ACGAAACCGGTAAAGCATTACCGGATATGTTAAAGTGTCGATACATTAATATAAGTATCGACACC
261 AAAAAACCAGTAAAGCACTACCAGATATATTAAAGTGTCGATACATT-AT-TAAGTATCGACACC
956155 TTTGGAATTTAAAAGAGGAGCAGTAATGGCGCTTATAAA
324 TTTGGAATTTAAAAGAGGAGCAGTAATGGCGCTTATAAA
**
956194 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGT-AAAAAAATGACGAAAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAAATGAAAAAAC
* * ** *
956258 CGGTCTATAAATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATA
66 CGATATATAAATGACAAAACCAATAAAGCGCTACCGGATATGTTGAAAGTGTCAATACATTAATA
* * * *
956323 TAAGTATCGACACTTTTGGAATTTAAAAGAGGAGCTGTAATAGCACCTATAAAGTGTCGATACTT
131 TAAGTATCGACACCTTTAGAATTTAAAAAAGGAGCAGTAATAGCACCTATAAAGTGTCGATACTT
* *
956388 TATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAATGACAAAACCGGTCTATAAATG
196 TACAAAAATGTATCGATCCATAACAATATAAAAGGTAAAAAAATGACAAAACCGGTCTATAAATG
*
956452 AAAAAACCAGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACATTATTAAGTA
261 AAAAAACCAGTAAAGCACTACCAGATATATT-AAAGTGTCGATACATTATTAAGTA
956508 GGCGTAATAA
Statistics
Matches: 288, Mismatches: 25, Indels: 5
0.91 0.08 0.02
Matches are distributed among these distances:
361 6 0.02
362 54 0.19
363 180 0.62
364 48 0.17
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.26
Consensus pattern (362 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAAATGAAAAAAC
CGATATATAAATGACAAAACCAATAAAGCGCTACCGGATATGTTGAAAGTGTCAATACATTAATA
TAAGTATCGACACCTTTAGAATTTAAAAAAGGAGCAGTAATAGCACCTATAAAGTGTCGATACTT
TACAAAAATGTATCGATCCATAACAATATAAAAGGTAAAAAAATGACAAAACCGGTCTATAAATG
AAAAAACCAGTAAAGCACTACCAGATATATTAAAGTGTCGATACATTATTAAGTATCGACACCTT
TGGAATTTAAAAGAGGAGCAGTAATGGCGCTTATAAA
Found at i:963545 original size:32 final size:32
Alignment explanation
Indices: 963497--963558 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
963487 TCAGGTTCAT
*
963497 TCCCTCCTCTTAGAGTATGGAACTCGAACAAC
1 TCCCTCCTCTTAGAGTATAGAACTCGAACAAC
* *
963529 TCCCTCCTTTTGGAGTATAGAACTCGAACA
1 TCCCTCCTCTTAGAGTATAGAACTCGAACA
963559 TCTTCAACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (32 bp):
TCCCTCCTCTTAGAGTATAGAACTCGAACAAC
Found at i:963624 original size:55 final size:54
Alignment explanation
Indices: 963541--963947 Score: 283
Period size: 55 Copynumber: 7.6 Consensus size: 54
963531 CCTCCTTTTG
* * * *
963541 GAGTATAGAACTCGAAC-ATCTTCAACAATCATGTCTGTTTTCTATTCCTTCAGA
1 GAGTATAG-ACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTTCTTCAGA
* * * *
963595 GAGTATAAGACTTGAACAATCTTCAACAATTGTGTTTGCTCCCTATTTCTTCAGA
1 GAGTAT-AGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTTCTTCAGA
*
963650 GAGTATCAGACTCGAACAATCTTCAATAATCGTGTCTGCTCTCTATTTCTTCAGA
1 GAGTAT-AGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTTCTTCAGA
* * * * * *
963705 GAGTATGAGACTCGAACAATCTTTTGAA-AAT-GGGTTTGCTCCCTCTTTCTTCAGG
1 GAGTAT-AGACTCGAACAATC--TTCAACAATCGTGTCTGCTCTCTATTTCTTCAGA
* * * *
963760 GAGTATAGAACTCGAACAATCTTCTGAA-AA-CGGGTTTGCTAC-CTCTTTCTTCAGG
1 GAGTATAG-ACTCGAACAATCTTC--AACAATCGTGTCTGCT-CTCTATTTCTTCAGA
* * * * *
963815 GAGTATAGAACTCGAA-AATCTT-TA-AA-CGAGT-TCGCTCCCTCTTTCTTCAGG
1 GAGTATAG-ACTCGAACAATCTTCAACAATCGTGTCT-GCTCTCTATTTCTTCAGA
* * * *
963866 GAGTATAGAACTCGAA-AATCTTC-A-AA-CGGGT-T-CACTCCTTCTTTCTTCAGG
1 GAGTATAG-ACTCGAACAATCTTCAACAATCGTGTCTGCTCT-C-TATTTCTTCAGA
*
963917 GAGTATAGAACTCGAA-AATCTTTAACAATCG
1 GAGTATAG-ACTCGAACAATCTTCAACAATCG
963948 GGTTCGGTCC
Statistics
Matches: 308, Mismatches: 28, Indels: 34
0.83 0.08 0.09
Matches are distributed among these distances:
49 2 0.01
50 3 0.01
51 87 0.28
52 1 0.00
53 4 0.01
54 23 0.07
55 180 0.58
56 4 0.01
57 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (54 bp):
GAGTATAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTTCTTCAGA
Found at i:963742 original size:110 final size:106
Alignment explanation
Indices: 963540--963993 Score: 423
Period size: 110 Copynumber: 4.2 Consensus size: 106
963530 CCCTCCTTTT
* * * *
963540 GGAGTATAGAACTCGAAC-ATCTTCAACAATCATGTCTGTTTTCTATTCCTTCAGAGAGTATAAG
1 GGAGTATAGAACTCGAACAATCTTCAA-AATCGTGTCTGCTCTCTATTTCTTCAGAGAGTAT-AG
* * * *
963604 ACTTGAACAATCTTCAACAATTGTGTTTGCTCCCTATTTCTTCAG
64 ACTCGAACAATCTTTAA-AA-TGAGTTTGCTCCCTCTTTCTTCAG
*
963649 AGAGTATCAG-ACTCGAACAATCTTCAATAATCGTGTCTGCTCTCTATTTCTTCAGAGAGTATGA
1 GGAGTAT-AGAACTCGAACAATCTTCAA-AATCGTGTCTGCTCTCTATTTCTTCAGAGAGTAT-A
*
963713 GACTCGAACAATCTTTTGAAAATGGGTTTGCTCCCTCTTTCTTCAG
63 GACTCGAACAATC-TTT-AAAATGAGTTTGCTCCCTCTTTCTTCAG
* * * *
963759 GGAGTATAGAACTCGAACAATCTTCTGAAAA-CGGGTTTGCTAC-CTCTTTCTTCAGGGAGTATA
1 GGAGTATAGAACTCGAACAATCTTC--AAAATCGTGTCTGCT-CTCTATTTCTTCAGAGAGTATA
* *
963822 GAACTCGAA-AATCTTT-AAACGAGTTCGCTCCCTCTTTCTTCAG
63 G-ACTCGAACAATCTTTAAAATGAGTTTGCTCCCTCTTTCTTCAG
* * * *
963865 GGAGTATAGAACTCGAA-AATCTTC-AAA-CGGGT-T-CACTCCTTCTTTCTTCAGGGAGTATAG
1 GGAGTATAGAACTCGAACAATCTTCAAAATCGTGTCTGCTCT-C-TATTTCTTCAGAGAGTATAG
* * *
963925 AACTCGAA-AATCTTTAACAATCGGGTTCGGTCCCTCTTTC-TCTAG
64 -ACTCGAACAATCTTTAA-AAT-GAGTTTGCTCCCTCTTTCTTC-AG
*
963970 GGAGTATGGAACTCGAA-AATCTTC
1 GGAGTATAGAACTCGAACAATCTTC
963994 TTCTAACGGG
Statistics
Matches: 305, Mismatches: 24, Indels: 36
0.84 0.07 0.10
Matches are distributed among these distances:
99 1 0.00
100 1 0.00
101 2 0.01
102 43 0.14
103 1 0.00
104 4 0.01
105 48 0.16
106 41 0.13
108 3 0.01
109 22 0.07
110 128 0.42
111 7 0.02
112 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (106 bp):
GGAGTATAGAACTCGAACAATCTTCAAAATCGTGTCTGCTCTCTATTTCTTCAGAGAGTATAGAC
TCGAACAATCTTTAAAATGAGTTTGCTCCCTCTTTCTTCAG
Found at i:963974 original size:54 final size:52
Alignment explanation
Indices: 963695--965358 Score: 1430
Period size: 54 Copynumber: 31.4 Consensus size: 52
963685 CTGCTCTCTA
* * *
963695 TTTCTTCAGAGAGTAT-GAGACTCGAACAATCTTTTGA-AAATGGGTTTGCTCCCTC
1 TTTCTT-AGGGAGTATAGA-ACTCGAA-AATC-TTT-ACAAACGGGTTCGCTCCCTC
* *
963750 TTTCTTCAGGGAGTATAGAACTCGAACAATCTTCTGA-AAACGGGTTTGCTACCTC
1 TTTCTT-AGGGAGTATAGAACTCGAA-AATCTT-T-ACAAACGGGTTCGCTCCCTC
*
963805 TTTCTTCAGGGAGTATAGAACTCGAAAATCTTT--AAACGAGTTCGCTCCCTC
1 TTTCTT-AGGGAGTATAGAACTCGAAAATCTTTACAAACGGGTTCGCTCCCTC
* *
963856 TTTCTTCAGGGAGTATAGAACTCGAAAATC-TT-CAAACGGGTTCACTCCTTC
1 TTTCTT-AGGGAGTATAGAACTCGAAAATCTTTACAAACGGGTTCGCTCCCTC
* *
963907 TTTCTTCAGGGAGTATAGAACTCGAAAATCTTTAACAATCGGGTTCGGTCCCTC
1 TTTCTT-AGGGAGTATAGAACTCGAAAATCTTT-ACAAACGGGTTCGCTCCCTC
* * * * * *
963961 TTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTTCTAACGGGTTTGCTTCTTC
1 TTTCT-TAGGGAGTATAGAACTCGAAAATCTT-TACAAACGGGTTCGCTCCCTC
* * *
964015 TTTCATTAAGGAGTATGGAACTTGAAAATCTTT--AAACGGGTTCGCTCCCTC
1 TTTC-TTAGGGAGTATAGAACTCGAAAATCTTTACAAACGGGTTCGCTCCCTC
* * * * * *
964066 TTTCTTCATGAAGCATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTCCCTC
1 TTTCTT-AGGGAGTATAGAACTCGAAAATCTT-TACAAACGGGTTCGCTCCCTC
* * *
964120 TTTCTCTAGGGAGTATGGAACTCCAATAA-C-TT-CACACGGGTTCGCTCCCTC
1 TTTCT-TAGGGAGTATAGAACTCGAA-AATCTTTACAAACGGGTTCGCTCCCTC
* * * * *
964171 TTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGGGTTCACTCCCTC
1 TTTCT-TAGGGAGTATAGAACTCGAAAATCTT-TACAAACGGGTTCGCTCCCTC
* * * * *
964225 TTTCTTCAGGAAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTCCCCC
1 TTTCTT-AGGGAGTATAGAACTCGAAAATCTT-TACAAACGGGTTCGCTCCCTC
* * * *
964279 TTTCTTCAGGAAGTATAGAACTCCAATAA-C-TT-CACACGGGTTCGCTCCCTT
1 TTTCTT-AGGGAGTATAGAACTCGAA-AATCTTTACAAACGGGTTCGCTCCCTC
* * *
964330 TTTCTCTAGGGAGTATGGAACTC-ATACATCTTTTTCAAACGGGTTCGCTCCCTC
1 TTTCT-TAGGGAGTATAGAACTCGA-AAATC-TTTACAAACGGGTTCGCTCCCTC
* * * *
964384 TTTCTCTAGGGAGTATGGAACTC-AGACATCTTCTTCAAACGGGTTCCCTCCCTC
1 TTTCT-TAGGGAGTATAGAACTCGA-AAATCTT-TACAAACGGGTTCGCTCCCTC
* * *
964438 TTTCTTTAGGGAGTATGGAACTCGAAAATCTTCTTCAAACGGGTTCGCTCTCTC
1 TTTC-TTAGGGAGTATAGAACTCGAAAATCTT-TACAAACGGGTTCGCTCCCTC
* * *
964492 TTTCTTCAGGAAGTATAGAACTCGGACATCTTCTTA-AAACGGGTTCGCTCCCTC
1 TTTCTT-AGGGAGTATAGAACTCGAAAATC-T-TTACAAACGGGTTCGCTCCCTC
* *
964546 TTTCTTCAGGAAGTATAGAACTCCAATAA-C-TT-CAAACGGGTTCGCTCCCTC
1 TTTCTT-AGGGAGTATAGAACTCGAA-AATCTTTACAAACGGGTTCGCTCCCTC
* * *
964597 TTTCTCTAGGGAGTATGGAACTC-AGACATCTTCTTCAAACGGGTTCGCTCCCTC
1 TTTCT-TAGGGAGTATAGAACTCGA-AAATCTT-TACAAACGGGTTCGCTCCCTC
* * * *
964651 TTTCTTCAGGAAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTCCCTC
1 TTTCTT-AGGGAGTATAGAACTCGAAAATCTT-TACAAACGGGTTCGCTCCCTC
* * *
964705 TTTCTTCAGGAAGTATAGAACTCCAATAA-C-TT-CACACGGGTTCGCTCCCTC
1 TTTCTT-AGGGAGTATAGAACTCGAA-AATCTTTACAAACGGGTTCGCTCCCTC
* * *
964756 TTTCTCTAGGGAGTATGGAACTCGAACATTTTCTTA-AAACGGGTTCGCTCCCTC
1 TTTCT-TAGGGAGTATAGAACTCGAA-AATCT-TTACAAACGGGTTCGCTCCCTC
* * * *
964810 TTTCTTCAGGAAGTATAGAACTC-AGACATCTTCTTCAAACGGGTTCGCTCCCTA
1 TTTCTT-AGGGAGTATAGAACTCGA-AAATCTT-TACAAACGGGTTCGCTCCCTC
* * * * *
964864 TTTCTTCAGGAAGTATAGAACTCCAATAA--ATT-CACACGGGTTCGCTCCCTT
1 TTTCTT-AGGGAGTATAGAACTCGAA-AATCTTTACAAACGGGTTCGCTCCCTC
* * *
964915 TTTCTCTAGGGAGTATGGAACTCGAACATCTTTTTCAAACGGGTTCGCTCCCTC
1 TTTCT-TAGGGAGTATAGAACTCGAAAATC-TTTACAAACGGGTTCGCTCCCTC
* * * *
964969 TTTCTCTAGAGAGTAT-GAAACTCGGACATCTTCTTCAAACGGGTTCGCTCCCTC
1 TTTCT-TAGGGAGTATAG-AACTCGAAAATCTT-TACAAACGGGTTCGCTCCCTC
* * * *
965023 TTTCTTTAGGGAGTATGGAACTCGAACATC-TT-CAAATGGGTTCGCTCCATC
1 TTTC-TTAGGGAGTATAGAACTCGAAAATCTTTACAAACGGGTTCGCTCCCTC
* *
965074 TTTCTCTAGGGAGTATGGAACTCGAACATC-TT-CAAACGGGTTCGCTCCCTC
1 TTTCT-TAGGGAGTATAGAACTCGAAAATCTTTACAAACGGGTTCGCTCCCTC
* * * * *
965125 TTTTTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGGGTTCGCTCCCTC
1 TTTCT-TAGGGAGTATAGAACTCGAAAATCTT-TACAAACGGGTTCGCTCCCTC
* * ** *
965179 TTTCTTCAGGAAGTATAGAACTC-AGACATCTTCTTTAAACGGGTTCACTCCCTC
1 TTTCTT-AGGGAGTATAGAACTCGA-AAATCTT-TACAAACGGGTTCGCTCCCTC
* * * *
965233 TTTCTTCAGGAAGTATAGAACTCCAATATC-TT-CAAACGGGTTCGATCCCTC
1 TTTCTT-AGGGAGTATAGAACTCGAAAATCTTTACAAACGGGTTCGCTCCCTC
*
965284 TTTCTATAGGGAGTATGGAACTC-AAACATC-TT-CAAACGGGTTCGCTCCCTC
1 TTTCT-TAGGGAGTATAGAACTCGAAA-ATCTTTACAAACGGGTTCGCTCCCTC
* *
965335 TTTTTCTAGGGAGTATGGAACTCG
1 TTTCT-TAGGGAGTATAGAACTCG
965359 GACATCTTCT
Statistics
Matches: 1398, Mismatches: 137, Indels: 151
0.83 0.08 0.09
Matches are distributed among these distances:
50 13 0.01
51 496 0.35
52 18 0.01
53 30 0.02
54 749 0.54
55 89 0.06
56 3 0.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (52 bp):
TTTCTTAGGGAGTATAGAACTCGAAAATCTTTACAAACGGGTTCGCTCCCTC
Found at i:965370 original size:105 final size:104
Alignment explanation
Indices: 963736--965370 Score: 1691
Period size: 105 Copynumber: 15.5 Consensus size: 104
963726 TTTTGAAAAT
* * ** * *
963736 GGGTTTGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTTGCTA
1 GGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGGAC-ATCTTCTTCAAACGGGTTCGCTC
* *
963801 CCTCTTTCTTCAGGGAGTATAGAACTCGAAA-ATCTTTAAAC
65 CCTCTTTCTT-AGGGAGTATGGAACTC-AAACATCTTCAAAC
* ** *
963842 GAGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTC-GA-A-AATCTTCAAACGGGTTCACTCC
1 GGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTCC
* * *
963904 TTCTTTCTTCAGGGAGTATAGAACTCGAAA-ATCTTTAACAATC
66 CTCTTTCTT-AGGGAGTATGGAACTC-AAACATC-TT--CAAAC
* * * * * * *
963947 GGGTTCGGTCCCTCTTTC-TCTAGGGAGTATGGAACTCGAAAATCTTCTTCTAACGGGTTTGCTT
1 GGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTC
* * * *
964011 CTTCTTTCATTAAGGAGTATGGAACTTGAAA-ATCTTTAAAC
65 CCTCTTTC-TTAGGGAGTATGGAAC-TCAAACATCTTCAAAC
* * *
964052 GGGTTCGCTCCCTCTTTCTTCATGAAGCATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTCC
1 GGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTCC
* * * *
964117 CTCTTTCTCTAGGGAGTATGGAACTCCAATAACTTCACAC
66 CTCTTTCT-TAGGGAGTATGGAACTCAAACATCTTCAAAC
* *
964157 GGGTTCGCTCCCTCTTTC-TCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGGGTTCACTC
1 GGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTC
* * * *
964221 CCTCTTTCTTCAGGAAGTATAGAACTCGGACATCTTCTTCAAAC
65 CCTCTTTCTT-AGGGAGTATGGAACTC--A-AACATCTTCAAAC
* * * ** *
964265 GGGTTCGCTCCCCCTTTCTTCAGGAAGTATAGAACTC-CA-AT-AACTTCACACGGGTTCGCTCC
1 GGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTCC
* *
964327 CTTTTTCTCTAGGGAGTATGGAACTCATACATCTTTTTCAAAC
66 CTCTTTCT-TAGGGAGTATGGAACTCAAACATC---TTCAAAC
* * *
964370 GGGTTCGCTCCCTCTTTC-TCTAGGGAGTATGGAACTCAGACATCTTCTTCAAACGGGTTCCCTC
1 GGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTC
*
964434 CCTCTTTCTTTAGGGAGTATGGAACTCGAAAATCTTCTTCAAAC
65 CCTCTTTC-TTAGGGAGTATGGAACTC--AAA-CATCTTCAAAC
* * *
964478 GGGTTCGCTCTCTCTTTCTTCAGGAAGTATAGAACTCGGACATCTTCTTAAAACGGGTTCGCTCC
1 GGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTCC
* * * * *
964543 CTCTTTCTTCAGGAAGTATAGAACTCCAATAACTTCAAAC
66 CTCTTTCTT-AGGGAGTATGGAACTCAAACATCTTCAAAC
* *
964583 GGGTTCGCTCCCTCTTTC-TCTAGGGAGTATGGAACTCAGACATCTTCTTCAAACGGGTTCGCTC
1 GGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTC
* * * *
964647 CCTCTTTCTTCAGGAAGTATAGAACTCGGACATCTTCTTCAAAC
65 CCTCTTTCTT-AGGGAGTATGGAACTC--A-AACATCTTCAAAC
* * ** *
964691 GGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTC-CA-AT-AACTTCACACGGGTTCGCTCC
1 GGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTCC
* *
964753 CTCTTTCTCTAGGGAGTATGGAACTCGAACATTTTCTTAAAAC
66 CTCTTTCT-TAGGGAGTATGGAACTCAAACA---TCTTCAAAC
* *
964796 GGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCAGACATCTTCTTCAAACGGGTTCGCTCC
1 GGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTCC
* * * * * ** *
964861 CTATTTCTTCAGGAAGTATAGAACTCCAATAAATTCACAC
66 CTCTTTCTT-AGGGAGTATGGAACTCAAACATCTTCAAAC
* * * *
964901 GGGTTCGCTCCCTTTTTC-TCTAGGGAGTATGGAACTCGAACATCTTTTTCAAACGGGTTCGCTC
1 GGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTC
* * * *
964965 CCTCTTTCTCTAGAGAGTATGAAACTCGGACATCTTCTTCAAAC
65 CCTCTTTCT-TAGGGAGTATGGAACTC--A-AACATCTTCAAAC
* * * *
965009 GGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGAACTC-GA-A-CATCTTCAAATGGGTTCGCTCC
1 GGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTCC
* *
965071 ATCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAAC
66 CTCTTTCT-TAGGGAGTATGGAACTCAAACATCTTCAAAC
*
965111 GGGTTCGCTCCCTCTTT-TTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGGGTTCGCTC
1 GGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTC
* * *
965175 CCTCTTTCTTCAGGAAGTATAGAACTCAGACATCTTCTTTAAAC
65 CCTCTTTCTT-AGGGAGTATGGAACTCAAACATCTTC---AAAC
* * * * *
965219 GGGTTCACTCCCTCTTTCTTCAGGAAGTATAGAACTC-CA-AT-ATCTTCAAACGGGTTCGATCC
1 GGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTCC
965281 CTCTTTCTATAGGGAGTATGGAACTCAAACATCTTCAAAC
66 CTCTTTCT-TAGGGAGTATGGAACTCAAACATCTTCAAAC
*
965321 GGGTTCGCTCCCTCTTT-TTCTAGGGAGTATGGAACTCGGACATCTTCTTC
1 GGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTCGGACATCTTCTTC
965371 GCTTCACTAC
Statistics
Matches: 1282, Mismatches: 182, Indels: 131
0.80 0.11 0.08
Matches are distributed among these distances:
101 5 0.00
102 130 0.10
103 7 0.01
104 19 0.01
105 674 0.53
106 53 0.04
107 14 0.01
108 361 0.28
109 14 0.01
110 2 0.00
111 3 0.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (104 bp):
GGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTCC
CTCTTTCTTAGGGAGTATGGAACTCAAACATCTTCAAAC
Found at i:965370 original size:159 final size:157
Alignment explanation
Indices: 963736--965370 Score: 1718
Period size: 159 Copynumber: 10.3 Consensus size: 157
963726 TTTTGAAAAT
* * * * ** * *
963736 GGGTTTGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTTGCTA
1 GGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGGAC-ATCATCTTCAAACGGGTTCGCTC
* * * * *
963801 CCTCTTTCT-TCAGGGAGTATAGAACTCGAAAATCTTTAAACGAGTTCGCTCCCTCTTTCTTCAG
65 CCTCTTTCTCT-AGGGAGTATGGAACTCCAATATCTTCAAACGGGTTCGCTCCCTCTTTCTT-AG
*
963865 GGAGTATAGAACTCGA-AA-ATCTTCAAAC
128 GGAGTATGGAACTCGACAACATCTTCAAAC
* * * * * * *
963893 GGGTTCACTCCTTCTTTCTTCAGGGAGTATAGAACTCGAAAATC-T-TTAACAATCGGGTTCGGT
1 GGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGGACATCATCTT--CAAACGGGTTCGCT
* * * * * *
963956 CCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTTCTAACGGGTTTGCTTCTTCTTTCAT
64 CCCTCTTTCTCTAGGGAGTATGGAACTC--CAAT-ATCTTCAAACGGGTTCGCTCCCTCTTTC-T
* * *
964021 TAAGGAGTATGGAACTTGA-AA-ATCTTTAAAC
125 TAGGGAGTATGGAACTCGACAACATCTTCAAAC
* * *
964052 GGGTTCGCTCCCTCTTTCTTCATGAAGCATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTCC
1 GGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGGACATCATCTTCAAACGGGTTCGCTCC
* *
964117 CTCTTTCTCTAGGGAGTATGGAACTCCAATAACTTCACACGGGTTCGCTCCCTCTTTCTCTAGGG
66 CTCTTTCTCTAGGGAGTATGGAACTCCAATATCTTCAAACGGGTTCGCTCCCTCTTTCT-TAGGG
* *
964182 AGTATGGAACTCGGACATCTTCTTCAAAC
130 AGTATGGAACTC-GACAACATCTTCAAAC
* *
964211 GGGTTCACTCCCTCTTTCTTCAGGAAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTCC
1 GGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGGACATCATCTTCAAACGGGTTCGCTCC
* * * * * *
964276 CCCTTTCT-TCAGGAAGTATAGAACTCCAATAACTTCACACGGGTTCGCTCCCTTTTTCTCTAGG
66 CTCTTTCTCT-AGGGAGTATGGAACTCCAATATCTTCAAACGGGTTCGCTCCCTCTTTCT-TAGG
* * * *
964340 GAGTATGGAACTCATACATCTTTTTCAAAC
129 GAGTATGGAACTC-GACAACATCTTCAAAC
* * * * *
964370 GGGTTCGCTCCCTCTTTC-TCTAGGGAGTATGGAACTCAGACATCTTCTTCAAACGGGTTCCCTC
1 GGGTTCGCTCCCTCTTTCTTC-AGGAAGTATAGAACTCGGACATCATCTTCAAACGGGTTCGCTC
* * * *
964434 CCTCTTTCTTTAGGGAGTATGGAACTCGAAAATCTTCTTCAAACGGGTTCGCTCTCTCTTTCTTC
65 CCTCTTTCTCTAGGGAGTATGGAACTC--CAAT-ATCTTCAAACGGGTTCGCTCCCTCTTTCTT-
* * * * *
964499 AGGAAGTATAGAACTCGGACATCTTCTTAAAAC
126 AGGGAGTATGGAACTC-GACAACATCTTCAAAC
* *
964532 GGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTC-CA-AT-AACTTCAAACGGGTTCGCTCC
1 GGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGGACATCATCTTCAAACGGGTTCGCTCC
* *
964594 CTCTTTCTCTAGGGAGTATGGAACTCAGACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCA
66 CTCTTTCTCTAGGGAGTATGGAACTC-CA-AT-ATCTTCAAACGGGTTCGCTCCCTCTTTCTT-A
* * * *
964659 GGAAGTATAGAACTCGGACATCTTCTTCAAAC
127 GGGAGTATGGAACTC-GACAACATCTTCAAAC
* * *
964691 GGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTC-CA-AT-AACTTCACACGGGTTCGCTCC
1 GGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGGACATCATCTTCAAACGGGTTCGCTCC
* * *
964753 CTCTTTCTCTAGGGAGTATGGAACTCGAACATTTTCTTAAAACGGGTTCGCTCCCTCTTTCTTCA
66 CTCTTTCTCTAGGGAGTATGGAACTC---CAATATCTTCAAACGGGTTCGCTCCCTCTTTCTT-A
* * * *
964818 GGAAGTATAGAACTCAGACATCTTCTTCAAAC
127 GGGAGTATGGAACTC-GACAACATCTTCAAAC
* * ** *
964850 GGGTTCGCTCCCTATTTCTTCAGGAAGTATAGAACTC-CA-AT-AAATTCACACGGGTTCGCTCC
1 GGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGGACATCATCTTCAAACGGGTTCGCTCC
* * *
964912 CTTTTTCTCTAGGGAGTATGGAACTCGAACATCTTTTTCAAACGGGTTCGCTCCCTCTTTCTCTA
66 CTCTTTCTCTAGGGAGTATGGAACTCCAATATC---TTCAAACGGGTTCGCTCCCTCTTTCT-TA
* * * *
964977 GAGAGTATGAAACTCGGACATCTTCTTCAAAC
127 GGGAGTATGGAACTC-GACAACATCTTCAAAC
* * * *
965009 GGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGAACTC-GA-A-CATCTTCAAATGGGTTCGCTCC
1 GGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGGACATCATCTTCAAACGGGTTCGCTCC
* * * *
965071 ATCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTTTCTAGGG
66 CTCTTTCTCTAGGGAGTATGGAACTCCAATATCTTCAAACGGGTTCGCTCCCTCTTTCT-TAGGG
* *
965136 AGTATGGAACTCGGACATCTTCTTCAAAC
130 AGTATGGAACTC-GACAACATCTTCAAAC
* * * *
965165 GGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCAGACATCTTCTTTAAACGGGTTCACTCC
1 GGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGGACATCATCTTCAAACGGGTTCGCTCC
* * *
965230 CTCTTTCT-TCAGGAAGTATAGAACTCCAATATCTTCAAACGGGTTCGATCCCTCTTTCTATAGG
66 CTCTTTCTCT-AGGGAGTATGGAACTCCAATATCTTCAAACGGGTTCGCTCCCTCTTTCT-TAGG
965294 GAGTATGGAACTC-A-AACATCTTCAAAC
129 GAGTATGGAACTCGACAACATCTTCAAAC
* * *
965321 GGGTTCGCTCCCTCTTT-TTCTAGGGAGTATGGAACTCGGACATCTTCTTC
1 GGGTTCGCTCCCTCTTTCTTC-AGGAAGTATAGAACTCGGACATCATCTTC
965371 GCTTCACTAC
Statistics
Matches: 1305, Mismatches: 139, Indels: 69
0.86 0.09 0.05
Matches are distributed among these distances:
154 1 0.00
155 5 0.00
156 221 0.17
157 46 0.04
158 10 0.01
159 920 0.70
160 8 0.01
161 9 0.01
162 83 0.06
163 2 0.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (157 bp):
GGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGGACATCATCTTCAAACGGGTTCGCTCC
CTCTTTCTCTAGGGAGTATGGAACTCCAATATCTTCAAACGGGTTCGCTCCCTCTTTCTTAGGGA
GTATGGAACTCGACAACATCTTCAAAC
Found at i:968433 original size:2 final size:2
Alignment explanation
Indices: 968426--968501 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
968416 TTATGTACCC
968426 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
968468 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
968502 TACTGGGTAT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:970603 original size:6 final size:6
Alignment explanation
Indices: 970588--970643 Score: 78
Period size: 6 Copynumber: 9.2 Consensus size: 6
970578 AAACAAATAC
*
970588 ATGC-A ATGCAA ATGCAA ATGCTAA ATGCAA ATGCCA ATGCTAA ATGCAA
1 ATGCAA ATGCAA ATGCAA ATGC-AA ATGCAA ATGCAA ATGC-AA ATGCAA
970637 ATGCAA A
1 ATGCAA A
970644 AGGTGTTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
5 4 0.09
6 31 0.67
7 11 0.24
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.20
Consensus pattern (6 bp):
ATGCAA
Found at i:970615 original size:13 final size:12
Alignment explanation
Indices: 970588--970643 Score: 78
Period size: 13 Copynumber: 4.6 Consensus size: 12
970578 AAACAAATAC
970588 ATGC-AATGCAA
1 ATGCAAATGCAA
970599 ATGCAAATGCTAA
1 ATGCAAATGC-AA
*
970612 ATGCAAATGCCA
1 ATGCAAATGCAA
970624 ATGCTAAATGCAA
1 ATGC-AAATGCAA
970637 ATGCAAA
1 ATGCAAA
970644 AGGTGTTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
11 4 0.10
12 13 0.32
13 23 0.57
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.20
Consensus pattern (12 bp):
ATGCAAATGCAA
Found at i:970616 original size:19 final size:19
Alignment explanation
Indices: 970592--970643 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
970582 AAATACATGC
970592 AATGCAAATGCAAATGCTA
1 AATGCAAATGCAAATGCTA
*
970611 AATGCAAATGCCAATGCTA
1 AATGCAAATGCAAATGCTA
970630 AATGCAAATGCAAA
1 AATGCAAATGCAAA
970644 AGGTGTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.19
Consensus pattern (19 bp):
AATGCAAATGCAAATGCTA
Found at i:975101 original size:19 final size:20
Alignment explanation
Indices: 975058--975107 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
975048 AATGTAGGGT
* *
975058 TAATTTTGTATATAGGTTTA
1 TAATTTTGTATATAGATTAA
*
975078 TAATTTTGTATA-CGATTAA
1 TAATTTTGTATATAGATTAA
975097 TAATTTTGTAT
1 TAATTTTGTAT
975108 GTGAATGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (20 bp):
TAATTTTGTATATAGATTAA
Done.